Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: tidygraph

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/tidygraph

A Tidy API for Graph Manipulation
8 versions
Latest release: over 1 year ago
56 dependent packages
48,898 downloads last month

Papers Mentioning tidygraph 23

10.3390/metabo9100200

The metaRbolomics Toolbox in Bioconductor and beyond
Cited by: 61
Author(s): Jan Stanstrup, Corey D. Broeckling, Rick Helmus, Nils Hoffmann, Ewy A. Mathé, Thomas Naake, Luca Nicolotti, Kristian Peters, Johannes Michael Rainer, Reza M. Salek, Tobias Schulze, Emma L. Schymanski, Michael A. Stravs, Etienne Thévenot, Hendrik Treutler, Ralf Weber, Egon Willighagen, Michael Witting, Steffen Neumann
Software Mentions: 92
Published: almost 5 years ago

10.3389/fonc.2020.617890

Comparative Proteome Identifies Complement Component 3-Mediated Immune Response as Key Difference of Colon Adenocarcinoma and Rectal Adenocarcinoma
Cited by: 9
Author(s): Jun-Ze Liang, Xiaoling Liang, Liye Zhong, Chutian Wu, Jing Zhang, Yang Wang
Software Mentions: 30
Published: over 3 years ago

10.1371/journal.pone.0244876

Predicting drug-metagenome interactions: Variation in the microbial β-glucuronidase level in the human gut metagenomes
Cited by: 12
Author(s): Moamen M. Elmassry, Sunghwan Kim, Ben Busby
Software Mentions: 16
Published: over 3 years ago

10.3389/fmed.2021.644724

Exploring the Clinical Characteristics of COVID-19 Clusters Identified Using Factor Analysis of Mixed Data-Based Cluster Analysis
Cited by: 10
Author(s): Han Liang, Pan Shen, Jiahui Yan, Yao Huang, Xin Ba, Wei Chen Lin, Hui Wang, Ying Huang, Kai Qin, Yu Wei, Zhe Chen, Shenghao Tu
Software Mentions: 12
Published: about 3 years ago

10.3390/genes9120569

NeVOmics: An Enrichment Tool for Gene Ontology and Functional Network Analysis and Visualization of Data from OMICs Technologies
Cited by: 13
Author(s): Eduardo Zúñiga-León, Ulises Carrasco-Navarro, Francisco Fierro
Software Mentions: 12
Published: almost 6 years ago

10.3390/jcm10184071

Diagnostic and Prognostic Potential of MiR-379/656 MicroRNA Cluster in Molecular Subtypes of Breast Cancer
Cited by: 2
Author(s): Megha Lal, Asgar Hussain Ansari, Anurag Agrawal, Arijit Mukhopadhyay
Software Mentions: 12
Published: about 3 years ago

10.1099/mgen.0.000524

BSGatlas: a unified Bacillus subtilis genome and transcriptome annotation atlas with enhanced information access
Cited by: 12
Author(s): Adrian Sven Geissler, Christian Anthon, Ferhat Alkan, Enrique González-Tortuero, Line Dahl Poulsen, Thomas Beuchert Kallehauge, Anne Breüner, Stefan E. Seemann, Jeppe Vinther, Jan Gorodkin
Software Mentions: 12
Published: over 3 years ago

10.1093/gigascience/giy083

Clustering trees: a visualization for evaluating clusterings at multiple resolutions
Cited by: 353
Author(s): Luke Zappia, Alicia Oshlack
Software Mentions: 9
Published: about 6 years ago

10.1371/journal.pone.0208370

Measuring popularity of ecological topics in a temporal dynamical knowledge network
Cited by: 3
Author(s): Tian-Yuan Huang, Bin Zhao
Software Mentions: 8
Published: over 5 years ago

10.1099/mgen.0.000244

Where the plasmids roam: large-scale sequence analysis reveals plasmids with large host ranges
Cited by: 10
Author(s): Lauren Brooks, Mo Kaze, Mark Sistrom
Software Mentions: 7
Published: over 5 years ago

10.1038/s41598-021-97805-3

Differences and similarities in the conceptualization of COVID-19 and other diseases in the first Italian lockdown
Cited by: 6
Author(s): Claudia María, Ilenia Falcinelli, Arthur-Henri Michalland, Luca Tummolini, Anna M. Borghi
Software Mentions: 6
Published: about 3 years ago

10.3390/metabo11040194

Plasma Metabolomic Profiling in 1391 Subjects with Overweight and Obesity from the SPHERE Study
Cited by: 12
Author(s): G. Frigerio, Chiara Favero, Diego Savino, Rosa Mercadante, Benedetta Albetti, Laura Dioni, Luisella Vigna, Valentina Bollati, Angela Cecilia Pesatori, Silvia Fustinoni
Software Mentions: 6
Published: over 3 years ago

10.1093/hmg/ddaa140

Motor neuron translatome reveals deregulation of SYNGR4 and PLEKHB1 in mutant TDP-43 amyotrophic lateral sclerosis models
Cited by: 13
Author(s): Rita F Marques, Jan Broder Engler, Katrin Küchler, Ross A. Jones, Thomas Lingner, Gabriela Salinas, Thomas H. Gillingwater, Manuel A. Friese, Kent E. Duncan
Software Mentions: 5
Published: about 4 years ago

10.3390/plants10040752

Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and Conservation
Cited by: 9
Author(s): Kyung-Jun Lee, Sebastin Raveendar, Gyu‐Taek Cho, Mun-Sup Yoon, Gi-An Lee, Do-Yoon Hyun
Software Mentions: 5
Published: over 3 years ago

10.3389/fmicb.2020.00681

Rhodobacterales and Rhizobiales Are Associated With Stony Coral Tissue Loss Disease and Its Suspected Sources of Transmission
Cited by: 82
Author(s): Stephanie M. Rosales, Abigail S. Clark, Lindsay K. Huebner, Rob Ruzicka, Erinn M. Muller
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0242955

Lessons from movement ecology for the return to work: Modeling contacts and the spread of COVID-19
Cited by: 4
Author(s): Allison K. Shaw, Lauren A. White, Matthew Michalska‐Smith, Elizabeth T. Borer, Meggan E. Craft, Eric W. Seabloom, Emilie C. Snell‐Rood, Michael Travisano
Software Mentions: 5
Published: over 3 years ago

10.1186/s12874-021-01352-4

Symptom clusters among cancer survivors: what can machine learning techniques tell us?
Cited by: 6
Author(s): Koen Ilja Neijenhuijs, Carel F.W. Peeters, Henk van Weert, Pim Cuijpers, I. Verdonck-de Leeuw
Software Mentions: 4
Published: about 3 years ago

10.1111/mec.16029

The impact of indoor residual spraying on <i>Plasmodium falciparum</i> microsatellite variation in an area of high seasonal malaria transmission in Ghana, West Africa
Cited by: 5
Author(s): Dionne C. Argyropoulos, Shazia Ruybal‐Pesántez, Samantha Deed, Abraham Oduro, Samuel Dadzie, Maxwell A. Appawu, Victor Asoala, Mercedes Pascual, Kwadwo A. Koram, Karen P. Day, Kathryn E. Tiedje
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-021-89126-2

HNF1A regulates colorectal cancer progression and drug resistance as a downstream of POU5F1
Cited by: 7
Author(s): Shiki Fujino, Norikatsu Miyoshi, Aya Ito, Masayoshi Yasui, Chu Matsuda, Masayuki Ohue, Mamoru Uemura, Tsunekazu Mizushima, Yuichiro Doki, Hidetoshi Eguchi
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0232512

Microbial biofilm community structure and composition on the lithic substrates of Herculaneum Suburban Baths
Cited by: 5
Author(s): Antonino De Natale, Bruno Hay Mele, Paola Cennamo, Angelo Del Mondo, Mariagioia Petraretti, Antonino Pollio
Software Mentions: 3
Published: over 4 years ago

10.1001/jamanetworkopen.2020.0512

Assessment of Electronic Health Record Search Patterns and Practices by Practitioners in a Large Integrated Health Care System
Cited by: 17
Author(s): Halley Ruppel, Aashish Bhardwaj, R. Manickam, Julia Adler‐Milstein, Marc Flagg, Manuel A. Ballesca, Jean‐Louis Vincent
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.ppat.1007698

Proximity-dependent proteomics of the Chlamydia trachomatis inclusion membrane reveals functional interactions with endoplasmic reticulum exit sites
Cited by: 24
Author(s): Mary S Dickinson, Lindsey Anderson, Bobbie-Jo M. Webb-Robertson, Joshua Hansen, Richard Smith, Aaron Wright, Kevin Hybiske
Software Mentions: 2
Published: over 5 years ago

10.3390/cancers13051096

Cross-Linking Ligation and Sequencing of Hybrids (qCLASH) Reveals an Unpredicted miRNA Targetome in Melanoma Cells
Cited by: 12
Author(s): Ines Kozar, Demetra Philippidou, Christiane Margue, Rolf Renne, Stephanie Kreis
Software Mentions: 1
Published: over 3 years ago